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    TRIM28 tripartite motif containing 28 [ Homo sapiens (human) ]

    Gene ID: 10155, updated on 9-Dec-2024

    Summary

    Official Symbol
    TRIM28provided by HGNC
    Official Full Name
    tripartite motif containing 28provided by HGNC
    Primary source
    HGNC:HGNC:16384
    See related
    Ensembl:ENSG00000130726 MIM:601742; AllianceGenome:HGNC:16384
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    KAP1; TF1B; RNF96; TIF1B; PPP1R157; TIF1beta
    Summary
    The protein encoded by this gene mediates transcriptional control by interaction with the Kruppel-associated box repression domain found in many transcription factors. The protein localizes to the nucleus and is thought to associate with specific chromatin regions. The protein is a member of the tripartite motif family. This tripartite motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in ovary (RPKM 89.1), testis (RPKM 80.5) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See TRIM28 in Genome Data Viewer
    Location:
    19q13.43
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (58544064..58550715)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (61641740..61648391)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (59055431..59062082)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11086 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11087 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11088 Neighboring gene zinc finger and BTB domain containing 45 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:59029424-59030084 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11089 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15207 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:59049840-59050470 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:59050471-59051099 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:59054606-59055110 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15208 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11091 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11092 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11093 Neighboring gene RNA, 7SL, cytoplasmic 525, pseudogene Neighboring gene microRNA 6807 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15209 Neighboring gene charged multivesicular body protein 2A Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15210 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:59067095-59067778 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11094 Neighboring gene ubiquitin conjugating enzyme E2 M

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify tripartite motif containing 28 (TRIM28), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    integrase gag-pol KAP1 inhibits HIV-1 integration via HIV-1 IN acetylation-dependent mechanism through HDAC1 PubMed
    gag-pol The interaction between HIV-1 IN and KAP1 is highly favored by HAT/p300-mediated IN acetylation PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ29029

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables Krueppel-associated box domain binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables RNA binding HDA PubMed 
    enables SUMO transferase activity EXP
    Inferred from Experiment
    more info
    PubMed 
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables chromo shadow domain binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables promoter-specific chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables transcription coactivator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables transcription corepressor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ubiquitin protein ligase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables ubiquitin protein ligase binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ubiquitin-protein transferase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables zinc ion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA methylation-dependent constitutive heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in DNA methylation-dependent constitutive heterochromatin formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in DNA repair IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in chromatin organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in convergent extension involved in axis elongation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in embryo implantation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in embryonic placenta morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in epithelial to mesenchymal transition ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in genomic imprinting IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in innate immune response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of single stranded viral RNA replication via double stranded DNA intermediate IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of DNA repair IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of protein import into nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein sumoylation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein sumoylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein sumoylation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in protein sumoylation TAS
    Traceable Author Statement
    more info
     
    involved_in suppression of viral release by host IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of RNA polymerase II transcription regulator complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in euchromatin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in heterochromatin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of protein-containing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    transcription intermediary factor 1-beta
    Names
    E3 SUMO-protein ligase TRIM28
    KAP-1
    KRAB [Kruppel-associated box domain]-associated protein 1
    KRAB-interacting protein 1
    KRIP-1
    RING finger protein 96
    RING-type E3 ubiquitin transferase TIF1-beta
    TIF1-beta
    nuclear corepressor KAP-1
    protein phosphatase 1, regulatory subunit 157
    transcriptional intermediary factor 1-beta
    NP_005753.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_046945.1 RefSeqGene

      Range
      4596..11247
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_005762.3NP_005753.1  transcription intermediary factor 1-beta

      See identical proteins and their annotated locations for NP_005753.1

      Status: REVIEWED

      Source sequence(s)
      AC016630, BC004978
      Consensus CDS
      CCDS12985.1
      UniProtKB/Swiss-Prot
      O00677, Q13263, Q7Z632, Q93040, Q96IM1
      UniProtKB/TrEMBL
      B2R8R5
      Related
      ENSP00000253024.4, ENST00000253024.10
      Conserved Domains (7) summary
      cd05502
      Location:696802
      Bromo_tif1_like; Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or ...
      smart00502
      Location:252378
      BBC; B-Box C-terminal domain
      cd15623
      Location:627669
      PHD_TIF1beta; PHD finger found in transcription intermediary factor 1-beta (TIF1-beta)
      cd16765
      Location:62124
      RING-HC_TIF1beta; RING finger, HC subclass, found in transcription inknown asiary factor 1-beta (TIF1-beta)
      cd19829
      Location:206249
      Bbox2_TIF1b_C-VI; B-box-type 2 zinc finger found in transcription intermediary factor 1-beta (TIF1-beta)
      cd19846
      Location:148199
      Bbox1_TIF1b_C-VI; B-box-type 1 zinc finger found in transcription intermediary factor 1-beta (TIF1-beta)
      NF033761
      Location:526626
      gliding_GltJ; adventurous gliding motility protein GltJ

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      58544064..58550715
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      61641740..61648391
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)